Ecology-guided prediction of cross-feeding interactions in the human gut microbiome von Goyal, Akshit, Wang, Tong, Dubinkina, Veronika, Maslov, Sergei

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Evidence for a multi-level trophic organization of the human gut microbiome von Wang, Tong, Goyal, Akshit, Dubinkina, Veronika, Maslov, Sergei

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Multistability and regime shifts in microbial communities explained by competition for essential nutrients von Dubinkina, Veronika, Fridman, Yulia, Pandey, Parth Pratim, Maslov, Sergei

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Complementary resource preferences spontaneously emerge in diauxic microbial communities von Wang, Zihan, Goyal, Akshit, Dubinkina, Veronika, George, Ashish B., Wang, Tong, Fridman, Yulia, Maslov, Sergei

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FUN-PROSE: A deep learning approach to predict condition-specific gene expression in fungi von Nambiar, Ananthan, Dubinkina, Veronika, Liu, Simon, Maslov, Sergei

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Assessment of k-mer spectrum applicability for metagenomic dissimilarity analysis von Dubinkina, Veronika B, Ischenko, Dmitry S, Ulyantsev, Vladimir I, Tyakht, Alexander V, Alexeev, Dmitry G

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Culturing of a complex gut microbial community in mucin-hydrogel carriers reveals strain- and gene-associated spatial organization von Jin, Xiaofan, Yu, Feiqiao B., Yan, Jia, Weakley, Allison M., Dubinkina, Veronika, Meng, Xiandong, Pollard, Katherine S.

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MetaFast: fast reference-free graph-based comparison of shotgun metagenomic data von Ulyantsev, Vladimir I, Kazakov, Sergey V, Dubinkina, Veronika B, Tyakht, Alexander V, Alexeev, Dmitry G

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Gut Microbiome-Host Metabolome Homeostasis upon Exposure to PFOS and GenX in Male Mice von Rashid, Faizan, Dubinkina, Veronika, Ahmad, Saeed, Maslov, Sergei, Irudayaraj, Joseph Maria Kumar

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Bottlenecks, Modularity, and the Neural Control of Behavior von Nande, Anjalika, Dubinkina, Veronika, Ravasio, Riccardo, Zhang, Grace H, Berman, Gordon J

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A transcriptomic atlas of acute stress response to low pH in multiple Issatchenkia orientalis strains von Dubinkina, Veronika, Bhogale, Shounak, Hsieh, Ping-Hung, Dibaeinia, Payam, Nambiar, Ananthan, Maslov, Sergei, Yoshikuni, Yasuo, Sinha, Saurabh

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Multiple stable states in microbial communities explained by the stable marriage problem von Goyal, Akshit, Dubinkina, Veronika, Maslov, Sergei

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FUN-PROSE: A deep learning approach to predict condition-specific gene expression in fungi von Ananthan Nambiar, Veronika Dubinkina, Simon Liu, Sergei Maslov

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Links of gut microbiota composition with alcohol dependence syndrome and alcoholic liver disease von Dubinkina, Veronika B, Tyakht, Alexander V, Odintsova, Vera Y, Yarygin, Konstantin S, Kovarsky, Boris A, Pavlenko, Alexander V, Ischenko, Dmitry S, Popenko, Anna S, Alexeev, Dmitry G, Taraskina, Anastasiya Y, Nasyrova, Regina F, Krupitsky, Evgeny M, Shalikiani, Nino V, Bakulin, Igor G, Shcherbakov, Petr L, Skorodumova, Lyubov O, Larin, Andrei K, Kostryukova, Elena S, Abdulkhakov, Rustam A, Abdulkhakov, Sayar R, Malanin, Sergey Y, Ismagilova, Ruzilya K, Grigoryeva, Tatiana V, Ilina, Elena N, Govorun, Vadim M

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A cross-study analysis of drug response prediction in cancer cell lines von Xia, Fangfang, Allen, Jonathan, Balaprakash, Prasanna, Brettin, Thomas, Garcia-Cardona, Cristina, Clyde, Austin, Cohn, Judith, Doroshow, James, Duan, Xiaotian, Dubinkina, Veronika, Evrard, Yvonne, Fan, Ya Ju, Gans, Jason, He, Stewart, Lu, Pinyi, Maslov, Sergei, Partin, Alexander, Shukla, Maulik, Stahlberg, Eric, Wozniak, Justin M, Yoo, Hyunseung, Zaki, George, Zhu, Yitan, Stevens, Rick

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Curated data for phage-bacteria hosts for BioML Hackathon von Dubinkina, Veronika

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Multiple stable states in microbial communities explained by the stable marriage problem von Goyal, Akshit, Dubinkina, Veronika, Maslov, Sergei

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Evidence for a multi-level trophic organization of the human gut microbiome von Wang, Tong, Goyal, Akshit, Dubinkina, Veronika, Maslov, Sergei

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Multistability and regime shifts in microbial communities explained by competition for essential nutrients von Dubinkina, Veronika, Fridman, Yulia, Pandey, Parth Pratim, Maslov, Sergei

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Alternative stable states in a model of microbial community limited by multiple essential nutrients von Dubinkina, Veronika, Fridman, Yulia, Pandey, Parth, Maslov, Sergei

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